Fig. 2

Synthetic replicate generation via peak down-sampling. A An example region along chromosome 17 of true, A549 ATAC-seq data. Real ATAC-seq signal (brown lines) is used to initialize two synthetic replicates. Red and black horizontal bodies depict negatively and positively oriented genes, respectively. B A portion of the genome-wide significant peaks (ranging from 0 to 1) are chosen randomly between the two synthetic replicates. Within one of the replicates, 85% of paired reads (blue and orange rectangles connected by grey dotted line) are removed to down-sample signal within that locus. C Example of two synthetic replicates with a known portion of peaks varying between them